Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 77 of 109
Found at i:24784483 original size:261 final size:261
Alignment explanation
Indices: 24784019--24784506 Score: 798
Period size: 261 Copynumber: 1.9 Consensus size: 261
24784009 ATGCTTTGTT
* *
24784019 GATAGATGTACCCTTTGTAGCGTTATCAACTTCTGGGATGCTATCAAGGGCCTTGAGATTATCTT
1 GATAGATGTACCCTTTGTAGCATTATCAACATCTGGGATGCTATCAAGGGCCTTGAGATTATCTT
* *
24784084 CCATTGATTGTGACGTGTCCATGATACCTTCTTGACGAGACATATTTTGCATCTGTTGACCATTT
66 CCATTGATTGTGACGTGCCCATGATACCTTCTTGACGAGACATATTTTGCATCTGTTCACCATTT
**
24784149 CTAATGTTATTCAAGCGGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAACTTC
131 CTAATGCAATTCAAGCGGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAACTTC
*
24784214 GGCTAATCTTTTGGATTTGTGTTCAGAATCTTTTTGCTTTGATGCTTTCGCAGCAATGTCATGGT
196 GGCTAATCTTTTGGATTTATGTTCAGAATCTTTTTGCTTTGATGCTTTCGCAGCAATGTCATGGT
24784279 C
261 C
*
24784280 GATAGATGTACCCTTTGTAGCATTATCAACATCTGGGATGCTATCAATGGCCTTGCA-ATTATCT
1 GATAGATGTACCCTTTGTAGCATTATCAACATCTGGGATGCTATCAAGGGCCTTG-AGATTATCT
* * *
24784344 TCCATTGATTGTGATGTGCCCATGATACCTTCTTGTCGAGACATATTTTGTATCTGTTCACCATT
65 TCCATTGATTGTGACGTGCCCATGATACCTTCTTGACGAGACATATTTTGCATCTGTTCACCATT
* * * ***
24784409 TTTTATGCAATTCAAGCTGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTTGGCTT
130 TCTAATGCAATTCAAGCGGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAACTT
*
24784474 TGGCTAATCTTTTGGATTTATGTTCAGAATCTT
195 CGGCTAATCTTTTGGATTTATGTTCAGAATCTT
24784507 CAACAGATCC
Statistics
Matches: 208, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
261 207 1.00
262 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (261 bp):
GATAGATGTACCCTTTGTAGCATTATCAACATCTGGGATGCTATCAAGGGCCTTGAGATTATCTT
CCATTGATTGTGACGTGCCCATGATACCTTCTTGACGAGACATATTTTGCATCTGTTCACCATTT
CTAATGCAATTCAAGCGGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAACTTC
GGCTAATCTTTTGGATTTATGTTCAGAATCTTTTTGCTTTGATGCTTTCGCAGCAATGTCATGGT
C
Found at i:24815785 original size:14 final size:15
Alignment explanation
Indices: 24815766--24815797 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24815756 TGTGGCACAT
24815766 AAAAAATA-TTTAAA
1 AAAAAATATTTTAAA
24815780 AAAAAATATTTTAAA
1 AAAAAATATTTTAAA
24815795 AAA
1 AAA
24815798 TGATTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATATTTTAAA
Found at i:24830960 original size:12 final size:12
Alignment explanation
Indices: 24830943--24830980 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
24830933 GAATGGAGAG
24830943 TTCAGAGAAATA
1 TTCAGAGAAATA
24830955 TTCAGAGAAATA
1 TTCAGAGAAATA
24830967 TTCAGAGAAATA
1 TTCAGAGAAATA
24830979 TT
1 TT
24830981 ATAATAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (12 bp):
TTCAGAGAAATA
Found at i:24832671 original size:14 final size:15
Alignment explanation
Indices: 24832652--24832682 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
24832642 TAATATACAT
24832652 AATTGTTC-AATAAA
1 AATTGTTCAAATAAA
24832666 AATTGTTCAAATAAA
1 AATTGTTCAAATAAA
24832681 AA
1 AA
24832683 AAAAGGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
AATTGTTCAAATAAA
Found at i:24840381 original size:23 final size:23
Alignment explanation
Indices: 24840338--24840384 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24840328 AGAGTCAAAA
*
24840338 TTTTAAAATTTTTTCATAATTTT
1 TTTTAAAATTTTTGCATAATTTT
*
24840361 TTTTAAAAATTTTTGGA-AATTTT
1 TTTT-AAAATTTTTGCATAATTTT
24840384 T
1 T
24840385 ATTAGACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTAAAATTTTTGCATAATTTT
Found at i:24842562 original size:5 final size:5
Alignment explanation
Indices: 24842554--24842578 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24842544 TCATTGATGG
24842554 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
24842579 TTGGTTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:24844909 original size:18 final size:18
Alignment explanation
Indices: 24844848--24844909 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
24844838 AAAGGGTAAG
*
24844848 AAGTAAAAGTTTAGGGGGA
1 AAGTAAAAGTTT-GAGGGA
* ** *
24844867 AAATAAAAAGTTTTTGGGG
1 AAGT-AAAAGTTTGAGGGA
24844886 AA-TAAAAGTTTGAGGGA
1 AAGTAAAAGTTTGAGGGA
24844903 AAGTAAA
1 AAGTAAA
24844910 TAGGGGGAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 13 0.38
18 5 0.15
19 8 0.24
20 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (18 bp):
AAGTAAAAGTTTGAGGGA
Found at i:24845274 original size:9 final size:9
Alignment explanation
Indices: 24845260--24845296 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24845250 TATAGTTTGA
24845260 TATTCGAAT
1 TATTCGAAT
24845269 TATTCGAAT
1 TATTCGAAT
*
24845278 TATTCGAGT
1 TATTCGAAT
24845287 TATTCGAAT
1 TATTCGAAT
24845296 T
1 T
24845297 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24845367 original size:9 final size:9
Alignment explanation
Indices: 24845350--24845380 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24845340 TCGAGTTGAT
24845350 TCGAATAAC
1 TCGAATAAC
*
24845359 TCGATTAAC
1 TCGAATAAC
24845368 TCGAATAAC
1 TCGAATAAC
24845377 TCGA
1 TCGA
24845381 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24861948 original size:33 final size:33
Alignment explanation
Indices: 24861906--24861972 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
24861896 CGTCCATTAG
24861906 ATGGAATGGTTGGGATGACTTCCAAAGGCTTGA
1 ATGGAATGGTTGGGATGACTTCCAAAGGCTTGA
24861939 ATGGAATGGTTGGGATGACTTCCAAAGGCTTGA
1 ATGGAATGGTTGGGATGACTTCCAAAGGCTTGA
24861972 A
1 A
24861973 ATCTAGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (33 bp):
ATGGAATGGTTGGGATGACTTCCAAAGGCTTGA
Found at i:24867917 original size:22 final size:22
Alignment explanation
Indices: 24867892--24868008 Score: 129
Period size: 22 Copynumber: 5.6 Consensus size: 22
24867882 TTATGCCTAG
*
24867892 CAGGCTTCGTGCCGGTGTTATT
1 CAGGCTTTGTGCCGGTGTTATT
* *
24867914 CAGGCTTTGTGGCAGTGTTATT
1 CAGGCTTTGTGCCGGTGTTATT
* *
24867936 CAGGCTTTGT----GT-CTAGT
1 CAGGCTTTGTGCCGGTGTTATT
24867953 -AGGCTTTGTGCCGGTGTTATT
1 CAGGCTTTGTGCCGGTGTTATT
* *
24867974 TAGTCTTTGTGCCGGTGTTATT
1 CAGGCTTTGTGCCGGTGTTATT
24867996 CAGGCTTTGTGCC
1 CAGGCTTTGTGCC
24868009 TAGCAAGCTT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
16 9 0.11
17 3 0.04
18 2 0.03
20 2 0.03
21 3 0.04
22 60 0.76
ACGTcount: A:0.10, C:0.18, G:0.31, T:0.41
Consensus pattern (22 bp):
CAGGCTTTGTGCCGGTGTTATT
Found at i:24867957 original size:60 final size:60
Alignment explanation
Indices: 24867872--24868029 Score: 217
Period size: 60 Copynumber: 2.6 Consensus size: 60
24867862 ATTATATTGC
* * * *
24867872 TATTCGGGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTTATTCAGGCTTTGTGGCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTTGTGCCAGTGT
* * * * * *
24867932 TATTCAGGCTTTGTGTCTAGTAGGCTTTGTGCCGGTGTTATTTAGTCTTTGTGCCGGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTTGTGCCAGTGT
*
24867992 TATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGT
24868030 ATTAAAAGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 85 1.00
ACGTcount: A:0.12, C:0.18, G:0.30, T:0.39
Consensus pattern (60 bp):
TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTTGTGCCAGTGT
Found at i:24877717 original size:19 final size:19
Alignment explanation
Indices: 24877693--24877730 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24877683 TTATAGGAAA
24877693 CCAATTCTATGCACAACGT
1 CCAATTCTATGCACAACGT
24877712 CCAATTCTATGCACAACGT
1 CCAATTCTATGCACAACGT
24877731 GTTAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAATTCTATGCACAACGT
Found at i:24879974 original size:20 final size:20
Alignment explanation
Indices: 24879949--24879988 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24879939 TAATATTTGT
24879949 TTGTCACAATTTTGCTATGC
1 TTGTCACAATTTTGCTATGC
24879969 TTGTCACAATTTTGCTATGC
1 TTGTCACAATTTTGCTATGC
24879989 ATGCAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
TTGTCACAATTTTGCTATGC
Found at i:24890041 original size:18 final size:18
Alignment explanation
Indices: 24890018--24890063 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
24890008 CACTGTGCAT
24890018 CTTTTCCAACACCTTTTA
1 CTTTTCCAACACCTTTTA
24890036 CTTTTCCAACACCTTTTA
1 CTTTTCCAACACCTTTTA
24890054 CTTTTCCAAC
1 CTTTTCCAAC
24890064 CATATTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (18 bp):
CTTTTCCAACACCTTTTA
Found at i:24892100 original size:43 final size:43
Alignment explanation
Indices: 24892008--24892100 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
24891998 CTGCAGAATG
* * *
24892008 CATTTCCACCAACATCTTAGAGGAAAACGCGTCCTACAGGAAG
1 CATTTTCACCAACATCTTAGAGGAAAACGCCTCCTACAGGAAA
* * * * *
24892051 CGTTTTCACTAACATGTTAGATGAAAACGCCTCCTGCAGGAAA
1 CATTTTCACCAACATCTTAGAGGAAAACGCCTCCTACAGGAAA
24892094 CATTTTC
1 CATTTTC
24892101 TCTCTGGCCA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CATTTTCACCAACATCTTAGAGGAAAACGCCTCCTACAGGAAA
Found at i:24893873 original size:45 final size:45
Alignment explanation
Indices: 24893809--24894015 Score: 414
Period size: 45 Copynumber: 4.6 Consensus size: 45
24893799 AATATTAGCT
24893809 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
1 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
24893854 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
1 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
24893899 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
1 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
24893944 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
1 TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
24893989 TGTTGTTTGGTTACCAGGAAAATGATT
1 TGTTGTTTGGTTACCAGGAAAATGATT
24894016 CAGGGTATAT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 162 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (45 bp):
TGTTGTTTGGTTACCAGGAAAATGATTAAAATCAGTTTGAAAATA
Found at i:24899319 original size:15 final size:15
Alignment explanation
Indices: 24899299--24899338 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
24899289 ATCATTGATT
24899299 TTCGGAACAAGAGTG
1 TTCGGAACAAGAGTG
24899314 TTCGGAACAAGAGTG
1 TTCGGAACAAGAGTG
24899329 TTCGGAACAA
1 TTCGGAACAA
24899339 AGGGAATCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (15 bp):
TTCGGAACAAGAGTG
Found at i:24899768 original size:27 final size:27
Alignment explanation
Indices: 24899727--24899833 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
24899717 TGTTATAACT
* *
24899727 GAAATACCTCTATAGGATAAAATGACC
1 GAAATACCTCCATAGGGTAAAATGACC
* * *
24899754 GAAATACCACCATAGGGTAGAATGACT
1 GAAATACCTCCATAGGGTAAAATGACC
*
24899781 GAAATACCTCCACAGGGTAAAATGACC
1 GAAATACCTCCATAGGGTAAAATGACC
24899808 GAAATACC-CTCATAGGGTAAAATGAC
1 GAAATACCTC-CATAGGGTAAAATGAC
24899834 TGTTATACCC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 68 0.99
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GAAATACCTCCATAGGGTAAAATGACC
Found at i:24899860 original size:54 final size:54
Alignment explanation
Indices: 24899724--24899835 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
24899714 CATTGTTATA
* * * *
24899724 ACTGAAATACCTCTATAGGATAAAATGACCGAAATACCACCATAGGGTAGAATG
1 ACTGAAATACCTCCACAGGGTAAAATGACCGAAATACCACCATAGGGTAAAATG
24899778 ACTGAAATACCTCCACAGGGTAAAATGACCGAAATACC-CTCATAGGGTAAAATG
1 ACTGAAATACCTCCACAGGGTAAAATGACCGAAATACCAC-CATAGGGTAAAATG
24899832 ACTG
1 ACTG
24899836 TTATACCCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (54 bp):
ACTGAAATACCTCCACAGGGTAAAATGACCGAAATACCACCATAGGGTAAAATG
Found at i:24903005 original size:21 final size:21
Alignment explanation
Indices: 24902980--24903019 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24902970 TATAATTACT
24902980 TCATG-CCAAAACATATATATA
1 TCATGACCAAAA-ATATATATA
24903001 TCATGACCAAAAATATATA
1 TCATGACCAAAAATATATA
24903020 ACTCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (21 bp):
TCATGACCAAAAATATATATA
Found at i:24903637 original size:7 final size:7
Alignment explanation
Indices: 24903605--24903645 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
24903595 AAAAGTAAGT
*
24903605 AAAAAAG
1 AAAAAAC
24903612 AAAAAA-
1 AAAAAAC
24903618 AAAAAA-
1 AAAAAAC
24903624 AAAAAAC
1 AAAAAAC
24903631 AAAAAAC
1 AAAAAAC
*
24903638 CAAAAAC
1 AAAAAAC
24903645 A
1 A
24903646 GAATAGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:24907418 original size:42 final size:43
Alignment explanation
Indices: 24907299--24907476 Score: 288
Period size: 43 Copynumber: 4.2 Consensus size: 43
24907289 TTTTCATGAC
* *
24907299 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
24907342 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
* *
24907385 CTTTAGCGGTGTTTGT-GGAAAAGCGCCGCTAAAGGTTATGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
*
24907427 CTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGACT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG-CT
24907471 -TTTAGC
1 CTTTAGC
24907477 TGGTTTATTT
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
42 40 0.32
43 84 0.67
44 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
Found at i:24907436 original size:85 final size:87
Alignment explanation
Indices: 24907292--24907476 Score: 297
Period size: 85 Copynumber: 2.2 Consensus size: 87
24907282 TTTCTATTTT
* *
24907292 TCATGAC-CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
1 TCATGACTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCGTTT
*
24907356 GTGGGAAAAGCGCCGCTAAAGG
66 GTGGGAAAAGCACCGCTAAAGG
* *
24907378 TCATG-CTCTTTAGCGGTGTTTGT-GGAAAAGCGCCGCTAAAGGTTATGCTCTTTAGCGGCGTTT
1 TCATGACTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCGTTT
24907441 GTGGGAAAAGCACCGCTAAAGG
66 GTGGGAAAAGCACCGCTAAAGG
24907463 TCATGACT-TTTAGC
1 TCATGACTCTTTAGC
24907477 TGGTTTATTT
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
85 71 0.77
86 21 0.23
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (87 bp):
TCATGACTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCGTTT
GTGGGAAAAGCACCGCTAAAGG
Found at i:24907570 original size:21 final size:21
Alignment explanation
Indices: 24907546--24907589 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24907536 TTTAACGGCA
** *
24907546 CTAAAAATCGCCGCTAAAGGC
1 CTAAAAAAAGCCGCTAAAAGC
24907567 CTAAAAAAAGCCGCTAAAAGC
1 CTAAAAAAAGCCGCTAAAAGC
24907588 CT
1 CT
24907590 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (21 bp):
CTAAAAAAAGCCGCTAAAAGC
Found at i:24907884 original size:41 final size:41
Alignment explanation
Indices: 24907825--24908107 Score: 307
Period size: 41 Copynumber: 6.9 Consensus size: 41
24907815 TAACCTTTCG
* * *
24907825 GGGCTTTTAGCAGTGTTTTTGAAAAAGCGCCGCTAAAGATC
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATC
* * *
24907866 GGGCTTTTAGTGGCGTTTTTTAAATAGCGCCGCTAAAGATT
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATC
* * *
24907907 GGGCTTTTAGCGGCGTTTTTTAAATAGTGCCGCTAAAGATT
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATC
* * * *
24907948 GGGCTTTTAGCGGTGTTTTTTAAATAGCGTCACTAAAGATC
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATC
* * * * * * *
24907989 GGGCTTTTAGAGGCATTTTTGAAAAAGCGCCACTAATGCTAA
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGAT-C
* * * * *
24908031 GAGC-TGTAGCGGCGTTTTTTAAAATGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATC
* *
24908071 TGGCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAA
1 GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAA
24908108 ACATTTTATT
Statistics
Matches: 204, Mismatches: 36, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
40 2 0.01
41 199 0.98
42 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
GGGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATC
Found at i:24908138 original size:20 final size:19
Alignment explanation
Indices: 24908110--24908155 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
24908100 CCGCTAAAAC
*
24908110 ATTTTATTTGTTTATTTACT
1 ATTTAATTTGTTTATTTA-T
24908130 ATTTAATTTGTTTATTTAT
1 ATTTAATTTGTTTATTTAT
24908149 A-TTAATT
1 ATTTAATT
24908156 AAAATTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 17 0.68
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTAATTTGTTTATTTAT
Found at i:24908470 original size:14 final size:14
Alignment explanation
Indices: 24908439--24908482 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24908429 AACATTTATA
*
24908439 GATTATGGAATTAGG
1 GATTATGG-ATTAAG
24908454 GATTATGGATTAAG
1 GATTATGGATTAAG
* *
24908468 GATTCTGGTTTAAG
1 GATTATGGATTAAG
24908482 G
1 G
24908483 GTTGTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:24908629 original size:134 final size:134
Alignment explanation
Indices: 24908481--24908748 Score: 500
Period size: 134 Copynumber: 2.0 Consensus size: 134
24908471 TCTGGTTTAA
* *
24908481 GGGTTGTGATTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTTGGGTTTATGGATTCGG
1 GGGTTGTGATTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGA
*
24908546 TGTCAGGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAG
66 TGTCAAGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAG
24908611 GGGT
131 GGGT
24908615 GGGTTGTGATTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGA
1 GGGTTGTGATTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGA
*
24908680 TGTCAAGTTAGGCTTTAGGGTTTAGATTCATTAGCGTGTTTTAATTTATATTAAATAATATTTAG
66 TGTCAAGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAG
24908745 GGGT
131 GGGT
24908749 TAGGGATTCA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.24, C:0.04, G:0.31, T:0.41
Consensus pattern (134 bp):
GGGTTGTGATTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGA
TGTCAAGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAG
GGGT
Found at i:24908783 original size:134 final size:134
Alignment explanation
Indices: 24908491--24908779 Score: 454
Period size: 134 Copynumber: 2.1 Consensus size: 134
24908481 GGGTTGTGAT
* * *
24908491 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTTGGGTTTATGGATTCGGTGTCAGGTTA
1 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGATGTCAAGTTA
*
24908556 GGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAGGGGTGGGTTG
66 GGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAGGGGTGGGTTC
* *
24908621 TGAT
131 AGAG
24908625 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGATGTCAAGTTA
1 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGATGTCAAGTTA
*
24908690 GGCTTTAGGGTTTAGATTCATTAGCGTGTTTTAATTTATATTAAATAATATTTAGGGGTTAGGGA
66 GGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAGGGG-T-GGG-
24908755 TTCAG-G
128 TTCAGAG
* * *
24908761 TTATGGTTTAGGGTTTAGA
1 TTAGGGGTTAGGGGTTAGA
24908780 TTAATTAGTG
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
134 119 0.84
135 1 0.01
136 19 0.13
137 3 0.02
ACGTcount: A:0.25, C:0.04, G:0.31, T:0.40
Consensus pattern (134 bp):
TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTCGATGTCAAGTTA
GGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAGGGGTGGGTTC
AGAG
Found at i:24908845 original size:21 final size:20
Alignment explanation
Indices: 24908821--24908869 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
24908811 TAAGGTTTAT
*
24908821 GGGTTAGCAGTTAGGGGTTAA
1 GGGTTAG-AGTTAGAGGTTAA
*
24908842 GGGTTTAGGGTTAGAGGTTAA
1 GGG-TTAGAGTTAGAGGTTAA
*
24908863 GAGTTAG
1 GGGTTAG
24908870 TGATTTAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.43, T:0.31
Consensus pattern (20 bp):
GGGTTAGAGTTAGAGGTTAA
Found at i:24908917 original size:213 final size:208
Alignment explanation
Indices: 24908548--24908943 Score: 485
Period size: 213 Copynumber: 1.9 Consensus size: 208
24908538 GGATTCGGTG
*
24908548 TCAGGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAATATTTAGGG
1 TCAGGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAAGATTTAGGG
* * * ** *
24908613 GTGGGTTGTGATTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTCGGGTTTATGGATTC
66 GTGAGTTGGGATTAAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATGGACTC
* * * *
24908678 GATGTCAAGTTAGGCTTTAGGGTTTAGATTCATTAGCGTGTTTTAATTTATATTAAATAATATTT
131 GAGGTCAAGTTAGGCTTTAAGGTTTAGATTAATTAGCATGTTTTAATTTATATTAAATAATATTT
24908743 AGGGGTTAGGGAT
196 AGGGGTTAGGGAT
* *
24908756 TCAGGTTATGG-TTTAGGGTTTAGATTAATTAGTG-GTTTTAAATTTATATATTAAATAAGGTTT
1 TCAGGTTA-GGCTTTAGGGTTTAGATTAATTAGCGTGTTTT-AA-TT-TATATTAAATAAGATTT
* * * * *
24908819 ATGGGTTAGCAGTTAGGGGTTAAGGGTTTA-GGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTT
62 A-GGGGT-G-AGTT-GGGATTAAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTT
* * * *
24908883 A-GAGACTCGGGGTCAAGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATAT
123 ATG-GACTCGAGGTCAAGTTAGGCTTTAAGGTTTAGATTAATTAGCATGTTTTAATTTATAT
24908944 ATTAATTAAG
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
207 5 0.03
208 32 0.20
209 4 0.03
210 16 0.10
211 4 0.03
212 2 0.01
213 83 0.53
214 11 0.07
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.42
Consensus pattern (208 bp):
TCAGGTTAGGCTTTAGGGTTTAGATTAATTAGCGTGTTTTAATTTATATTAAATAAGATTTAGGG
GTGAGTTGGGATTAAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATGGACTC
GAGGTCAAGTTAGGCTTTAAGGTTTAGATTAATTAGCATGTTTTAATTTATATTAAATAATATTT
AGGGGTTAGGGAT
Found at i:24909499 original size:16 final size:15
Alignment explanation
Indices: 24909480--24909514 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24909470 ATTTATAAAT
24909480 TTTAATATCGATAGTA
1 TTTAA-ATCGATAGTA
*
24909496 TTTAAATTGATAGTA
1 TTTAAATCGATAGTA
24909511 TTTA
1 TTTA
24909515 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (15 bp):
TTTAAATCGATAGTA
Found at i:24911479 original size:21 final size:21
Alignment explanation
Indices: 24911453--24911492 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24911443 GTTTGCTACG
24911453 TTCGTGCAAAAAACGCAATCA
1 TTCGTGCAAAAAACGCAATCA
*
24911474 TTCGTGCCAAAAACGCAAT
1 TTCGTGCAAAAAACGCAAT
24911493 AAATTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (21 bp):
TTCGTGCAAAAAACGCAATCA
Found at i:24911791 original size:17 final size:17
Alignment explanation
Indices: 24911771--24911848 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 17
24911761 TTCATATCTA
24911771 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
24911788 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
24911802 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* *
24911818 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
24911833 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
24911849 AAGTGTTCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.22
14 2 0.04
15 11 0.22
16 6 0.12
17 21 0.41
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.51
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:24911807 original size:13 final size:13
Alignment explanation
Indices: 24911789--24911816 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24911779 TTCTAAATTT
24911789 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
24911802 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
24911815 AT
1 AT
24911817 TTATTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:24911832 original size:15 final size:15
Alignment explanation
Indices: 24911812--24911896 Score: 59
Period size: 15 Copynumber: 5.6 Consensus size: 15
24911802 ATAAGTTTTC
24911812 TAAATTTATTAGTAT
1 TAAATTTATTAGTAT
* *
24911827 TAAATTTATAAGTTTT
1 TAAATTTATTAG-TAT
* *
24911843 CTAAA-TAAGT-GT-T
1 -TAAATTTATTAGTAT
24911856 CTAAATTTATTAGTAAT
1 -TAAATTTATTAGT-AT
*
24911873 AAAATTTATTAGTAT
1 TAAATTTATTAGTAT
*
24911888 TAATTTTAT
1 TAAATTTAT
24911897 AAGTTTTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
13 6 0.11
14 4 0.07
15 23 0.43
16 16 0.30
17 5 0.09
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:24911832 original size:45 final size:46
Alignment explanation
Indices: 24911782--24911881 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 46
24911772 ATAAGTTTTC
*
24911782 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGT-AT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAAT
24911827 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAAT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAAT
*
24911873 AAAATTTAT
1 TAAATTTAT
24911882 TAGTATTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
45 42 0.81
46 10 0.19
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (46 bp):
TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAAT
Found at i:24911959 original size:9 final size:9
Alignment explanation
Indices: 24911927--24912436 Score: 206
Period size: 9 Copynumber: 60.4 Consensus size: 9
24911917 TATAAGCTTG
24911927 CATAACTTA
1 CATAACTTA
24911936 CATAA--TA
1 CATAACTTA
**
24911943 CACCACTTA
1 CATAACTTA
24911952 CATAACTTA
1 CATAACTTA
24911961 CATAACTTA
1 CATAACTTA
*
24911970 TAT-A--TA
1 CATAACTTA
*
24911976 -ATAACATA
1 CATAACTTA
24911984 -ATAACTTA
1 CATAACTTA
24911992 CATAACTTA
1 CATAACTTA
*
24912001 TAT-A--TA
1 CATAACTTA
*
24912007 -ATAACATA
1 CATAACTTA
*
24912015 -ATAAATTA
1 CATAACTTA
*
24912023 CATAA--TG
1 CATAACTTA
*
24912030 CATAA-TAA
1 CATAACTTA
24912038 CATAA--TA
1 CATAACTTA
24912045 CATAACTTATA
1 CATAAC-T-TA
* *
24912056 TATAAGCTTG
1 CATAA-CTTA
24912066 CATAACTTA
1 CATAACTTA
24912075 CATAA--TA
1 CATAACTTA
**
24912082 CACCACTTA
1 CATAACTTA
*
24912091 CTTAACTTA
1 CATAACTTA
*
24912100 CATAGCTTA
1 CATAACTTA
*
24912109 CAT-TC-TA
1 CATAACTTA
*
24912116 CACAACTTA
1 CATAACTTA
*
24912125 CATAACATA
1 CATAACTTA
24912134 CATAA--TA
1 CATAACTTA
*
24912141 CAGAACTTA
1 CATAACTTA
**
24912150 CATAAAATA
1 CATAACTTA
24912159 C--AACTTA
1 CATAACTTA
*
24912166 CATATCTTA
1 CATAACTTA
24912175 CATAA--TA
1 CATAACTTA
24912182 CA-ACACTTA
1 CATA-ACTTA
*
24912191 CACAACTTA
1 CATAACTTA
* *
24912200 AATAACTTG
1 CATAACTTA
24912209 CATAA--TA
1 CATAACTTA
* *
24912216 CATAGCCTA
1 CATAACTTA
24912225 CATAACTTA
1 CATAACTTA
* *
24912234 TATAACTTT
1 CATAACTTA
**
24912243 CATAAAATA
1 CATAACTTA
*
24912252 C--AACTTC
1 CATAACTTA
**
24912259 CATATTTTA
1 CATAACTTA
24912268 CATAAAACTTA
1 CAT--AACTTA
*
24912279 TATAA--TA
1 CATAACTTA
24912286 CATAACTTA
1 CATAACTTA
24912295 CATAA--TA
1 CATAACTTA
24912302 CA-ACACTTA
1 CATA-ACTTA
*
24912311 CACAACTTA
1 CATAACTTA
* *
24912320 AATAACTTC
1 CATAACTTA
24912329 CATAA--TA
1 CATAACTTA
* *
24912336 CATAGCCTA
1 CATAACTTA
24912345 CATAACTTA
1 CATAACTTA
*
24912354 TATAACTTA
1 CATAACTTA
24912363 CATAA--TA
1 CATAACTTA
**
24912370 CAGCACTTA
1 CATAACTTA
24912379 CATAACTTA
1 CATAACTTA
*
24912388 CATAGCTTA
1 CATAACTTA
*
24912397 CATAATACATA
1 CAT-A-ACTTA
*
24912408 AATAACTTA
1 CATAACTTA
**
24912417 TGTAA--TA
1 CATAACTTA
24912424 CATAACTTA
1 CATAACTTA
24912433 CATA
1 CATA
24912437 GTTTACTTAA
Statistics
Matches: 369, Mismatches: 84, Indels: 96
0.67 0.15 0.17
Matches are distributed among these distances:
5 4 0.01
6 8 0.02
7 77 0.21
8 26 0.07
9 226 0.61
10 9 0.02
11 18 0.05
12 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:24911984 original size:19 final size:19
Alignment explanation
Indices: 24911960--24912015 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
24911950 TACATAACTT
24911960 ACATAACTTATATATAATA
1 ACATAACTTATATATAATA
*
24911979 ACATAA--TA-A-CT--T-
1 ACATAACTTATATATAATA
24911991 ACATAACTTATATATAATA
1 ACATAACTTATATATAATA
24912010 ACATAA
1 ACATAA
24912016 TAAATTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 6 0.21
13 1 0.04
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 1 0.04
19 12 0.43
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
ACATAACTTATATATAATA
Found at i:24911986 original size:8 final size:8
Alignment explanation
Indices: 24911973--24912049 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
24911963 TAACTTATAT
24911973 ATAATAAC
1 ATAATAAC
24911981 ATAATAAC
1 ATAATAAC
*
24911989 TTACATAAC
1 ATA-ATAAC
* *
24911998 -TTAT-AT
1 ATAATAAC
24912004 ATAATAAC
1 ATAATAAC
24912012 ATAATAA-
1 ATAATAAC
24912019 ATTACATAATGC
1 A-TA-ATAA--C
24912031 ATAATAAC
1 ATAATAAC
24912039 ATAAT-AC
1 ATAATAAC
24912046 ATAA
1 ATAA
24912050 CTTATATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
6 1 0.02
7 12 0.21
8 27 0.48
9 9 0.16
10 4 0.07
11 2 0.04
12 1 0.02
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (8 bp):
ATAATAAC
Found at i:24911991 original size:31 final size:31
Alignment explanation
Indices: 24911953--24912027 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
24911943 CACCACTTAC
24911953 ATAACTTACATAACTTATATATAATAACATA
1 ATAACTTACATAACTTATATATAATAACATA
24911984 ATAACTTACATAACTTATATATAATAACATA
1 ATAACTTACATAACTTATATATAATAACATA
*
24912015 ATAAATTACATAA
1 ATAACTTACATAA
24912028 TGCATAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (31 bp):
ATAACTTACATAACTTATATATAATAACATA
Found at i:24912042 original size:15 final size:14
Alignment explanation
Indices: 24911973--24912049 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 14
24911963 TAACTTATAT
24911973 ATAATAACATAATAAC
1 ATAATAACATAAT--C
* *
24911989 TTACATAACTTATAT-
1 ATA-ATAACATA-ATC
24912004 ATAATAACATAAT-
1 ATAATAACATAATC
*
24912017 A-AATTACATAATGC
1 ATAATAACATAAT-C
24912031 ATAATAACATAATAC
1 ATAATAACATAAT-C
24912046 ATAA
1 ATAA
24912050 CTTATATATA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
12 10 0.20
13 3 0.06
14 8 0.16
15 17 0.35
16 2 0.04
17 7 0.14
18 2 0.04
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (14 bp):
ATAATAACATAATC
Found at i:24912118 original size:34 final size:34
Alignment explanation
Indices: 24912066--24912436 Score: 118
Period size: 34 Copynumber: 10.9 Consensus size: 34
24912056 TATAAGCTTG
* * *
24912066 CATAACTTACATAATACACCACTTACTTAACTTA
1 CATAACTTACATAATACACAACTTACATAACATA
* **
24912100 CATAGCTTACATTCTACACAACTTACATAACATA
1 CATAACTTACATAATACACAACTTACATAACATA
* * ** *
24912134 CATAA--TACAGAACTTACATAAAATAC--AACTTA
1 CATAACTTACATAA--TACACAACTTACATAACATA
* * *
24912166 CATATCTTACATAATACA-ACACTTACACAACTTA
1 CATAACTTACATAATACACA-ACTTACATAACATA
* * * * * *
24912200 AATAACTTGCATAATACATAGCCTACATAACTTA
1 CATAACTTACATAATACACAACTTACATAACATA
* * * * * ***
24912234 TATAACTTTCATAAAATACAACTTCCATATTTTA
1 CATAACTTACATAATACACAACTTACATAACATA
* *
24912268 CATAAAACTTATATAATACATAACTTACAT-A-ATA
1 CAT--AACTTACATAATACACAACTTACATAACATA
* * * *
24912302 CA-ACACTTACACAACTTAAATAACTTCCAT-A-ATA
1 CATA-ACTTACATAA--TACACAACTTACATAACATA
* * * *
24912336 CATAGCCTACATAACTTATATAACTTACAT-A-ATA
1 CATAACTTACATAA--TACACAACTTACATAACATA
** * *
24912370 CAGCACTTACATAACTTACATAGCTTACATAATACATA
1 CATAACTTACATAA--TACACAACTTACAT-A-ACATA
* ** *
24912408 AATAACTTATGTAATACATAACTTACATA
1 CATAACTTACATAATACACAACTTACATA
24912437 GTTTACTTAA
Statistics
Matches: 255, Mismatches: 64, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
31 2 0.01
32 29 0.11
34 176 0.69
35 3 0.01
36 32 0.13
37 1 0.00
38 12 0.05
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (34 bp):
CATAACTTACATAATACACAACTTACATAACATA
Found at i:24912122 original size:25 final size:25
Alignment explanation
Indices: 24912094--24912160 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
24912084 CCACTTACTT
* * **
24912094 AACTTACATAGCTTACATTCTACAC
1 AACTTACATAACATACATAATACAC
*
24912119 AACTTACATAACATACATAATACAG
1 AACTTACATAACATACATAATACAC
*
24912144 AACTTACATAAAATACA
1 AACTTACATAACATACA
24912161 ACTTACATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.22, G:0.03, T:0.27
Consensus pattern (25 bp):
AACTTACATAACATACATAATACAC
Found at i:24912167 original size:25 final size:26
Alignment explanation
Indices: 24912114--24912204 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 26
24912104 GCTTACATTC
* * *
24912114 TACACAACTTACATAACATACATA-A
1 TACACAACTTACATAAAATACACACT
*
24912139 TACAGAACTTACATAAAATACA-ACT
1 TACACAACTTACATAAAATACACACT
* *
24912164 TACATATCTTACAT--AATACAACACT
1 TACACAACTTACATAAAATAC-ACACT
*
24912189 TACACAACTTAAATAA
1 TACACAACTTACATAA
24912205 CTTGCATAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
23 5 0.09
24 2 0.04
25 46 0.87
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (26 bp):
TACACAACTTACATAAAATACACACT
Found at i:24912294 original size:16 final size:16
Alignment explanation
Indices: 24911927--24912436 Score: 165
Period size: 16 Copynumber: 29.8 Consensus size: 16
24911917 TATAAGCTTG
24911927 CATAACTTACATAATA
1 CATAACTTACATAATA
**
24911943 CACCACTTACATAACTTA
1 CATAACTTACATAA--TA
*
24911961 CATAACTTATAT-ATA
1 CATAACTTACATAATA
*
24911976 -ATAACATA-ATAACTTA
1 CATAACTTACATAA--TA
*
24911992 CATAACTTATATATAATAA
1 CATAAC-T-TACATAAT-A
* *
24912011 CATAATAAATTACATAATG
1 C---ATAACTTACATAATA
*
24912030 CATAA-TAACATAATA
1 CATAACTTACATAATA
* *
24912045 CATAACTTATATATAAGCTTG
1 CATAAC-T-TACATAA---TA
24912066 CATAACTTACATAATA
1 CATAACTTACATAATA
** *
24912082 CACCACTTACTTAACTTA
1 CATAACTTACATAA--TA
* **
24912100 CATAGCTTACATTCTA
1 CATAACTTACATAATA
*
24912116 CACAACTTACATAACATA
1 CATAACTTACAT-A-ATA
*
24912134 CATAA--TACAGAACTTA
1 CATAACTTACATAA--TA
** *
24912150 CATAAAATACA-ACTTA
1 CATAACTTACATA-ATA
*
24912166 CATATCTTACATAATA
1 CATAACTTACATAATA
*
24912182 CA-ACACTTACACAACTTA
1 CATA-ACTTACATAA--TA
* *
24912200 AATAACTTGCATAATA
1 CATAACTTACATAATA
* *
24912216 CATAGCCTACATAACTTA
1 CATAACTTACATAA--TA
* * *
24912234 TATAACTTTCATAAAA
1 CATAACTTACATAATA
* * * *
24912250 TACAACTTCCATATTTTA
1 CATAACTTACATA--ATA
*
24912268 CATAAAACTTATATAATA
1 CAT--AACTTACATAATA
24912286 CATAACTTACATAATA
1 CATAACTTACATAATA
*
24912302 CA-ACACTTACACAACTTA
1 CATA-ACTTACATAA--TA
* *
24912320 AATAACTTCCATAATA
1 CATAACTTACATAATA
* *
24912336 CATAGCCTACATAACTTA
1 CATAACTTACATAA--TA
*
24912354 TATAACTTACATAATA
1 CATAACTTACATAATA
**
24912370 CAGCACTTACATAACTTA
1 CATAACTTACATAA--TA
*
24912388 CATAGCTTACATAATA
1 CATAACTTACATAATA
**
24912404 CATAAATAACTTATGTAATA
1 C----ATAACTTACATAATA
24912424 CATAACTTACATA
1 CATAACTTACATA
24912437 GTTTACTTAA
Statistics
Matches: 360, Mismatches: 83, Indels: 102
0.66 0.15 0.19
Matches are distributed among these distances:
13 2 0.01
14 9 0.03
15 18 0.05
16 160 0.44
17 9 0.03
18 104 0.29
19 13 0.04
20 33 0.09
21 8 0.02
22 4 0.01
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:24912371 original size:25 final size:25
Alignment explanation
Indices: 24912343--24912453 Score: 87
Period size: 25 Copynumber: 4.3 Consensus size: 25
24912333 ATACATAGCC
*
24912343 TACATAACTTATATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
** *
24912368 TACAGCACTTACATAACTTACATAGCT
1 TACATAACTTACATAACTTACATA--A
* * **
24912395 TACATAATACATAAATAACTTATGTAA
1 TACAT-A-ACTTACATAACTTACATAA
** *
24912422 TACATAACTTACATAGTTTACTTAA
1 TACATAACTTACATAACTTACATAA
24912447 TACATAA
1 TACATAA
24912454 ATATATATCA
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
25 41 0.63
26 1 0.02
27 9 0.14
29 14 0.22
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:24912389 original size:120 final size:117
Alignment explanation
Indices: 24912119--24912408 Score: 370
Period size: 120 Copynumber: 2.4 Consensus size: 117
24912109 CATTCTACAC
* * ** * *
24912119 AACTTACATAACATACATA-ATACAGAACTTACATAAAATACA-ACTTACATATCTTACATAATA
1 AACTTACATAA-ATACA-ACTTACATAACTTACATAACTTACATA-ATACATAACTTACATAATA
*
24912182 CAACACTTACACAACTTAAATAACTTGCATAATACATAGCCTACATAACTTATAT
63 CAACACTTACACAACTTAAATAACTTCCATAATACATAGCCTACATAACTTATAT
* * ** *
24912237 AACTTTCATAAAATACAACTTCCATATTTTACATAAAACTTATATAATACATAACTTACATAATA
1 AACTTACAT-AAATACAACTTACATAACTTACAT--AACTTACATAATACATAACTTACATAATA
24912302 CAACACTTACACAACTTAAATAACTTCCATAATACATAGCCTACATAACTTATAT
63 CAACACTTACACAACTTAAATAACTTCCATAATACATAGCCTACATAACTTATAT
*
24912357 AACTTACAT-AATACAGCACTTACATAACTTACATAGCTTACATAATACATAA
1 AACTTACATAAATACA--ACTTACATAACTTACATAACTTACATAATACATAA
24912409 ATAACTTATG
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
117 1 0.01
118 45 0.31
119 2 0.01
120 98 0.67
121 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (117 bp):
AACTTACATAAATACAACTTACATAACTTACATAACTTACATAATACATAACTTACATAATACAA
CACTTACACAACTTAAATAACTTCCATAATACATAGCCTACATAACTTATAT
Found at i:24915522 original size:55 final size:56
Alignment explanation
Indices: 24915437--24915545 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 56
24915427 CTCGTTCGCG
24915437 CTCCTAAAGAAAACAACATCAAGATATCAATAAGTTGTTCACAGAATCTTTTCACT
1 CTCCTAAAGAAAACAACATCAAGATATCAATAAGTTGTTCACAGAATCTTTTCACT
24915493 CTCCTAAAG-AAACAACATCAAGATATCAATAAGTTGTTCACAGAATCTTTTCA
1 CTCCTAAAGAAAACAACATCAAGATATCAATAAGTTGTTCACAGAATCTTTTCA
24915546 TGAATGGTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 44 0.83
56 9 0.17
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (56 bp):
CTCCTAAAGAAAACAACATCAAGATATCAATAAGTTGTTCACAGAATCTTTTCACT
Found at i:24919243 original size:19 final size:19
Alignment explanation
Indices: 24919219--24919256 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24919209 GTAAGTATTT
*
24919219 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
24919238 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
24919257 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:24919518 original size:43 final size:43
Alignment explanation
Indices: 24919455--24919771 Score: 411
Period size: 43 Copynumber: 7.4 Consensus size: 43
24919445 CGTTTTTAAA
* * * *
24919455 AAAAACGCCACTAAAAGTCATGGTTTTTTAGCGGCG-TTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGG-TCTTTAGCGGCGTTTGTGGG
*
24919498 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * *
24919541 AAAAACGCCGCTAAAGGTCATAGTCTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
** * * * *
24919584 AAAAGCATCGCTAAAGATCGTGGTCTATAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
**
24919627 AAAAGCGCCATTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * **
24919670 AAAGGCGCCGCTAAAGGTCATGGTATTTAGCGGCAATTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* *
24919713 AAAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
*
24919756 AAAAGCACCGCTAAAG
1 AAAAGCGCCGCTAAAG
24919772 TTAGCGACGC
Statistics
Matches: 238, Mismatches: 35, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
42 11 0.05
43 227 0.95
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
Found at i:24920969 original size:28 final size:28
Alignment explanation
Indices: 24920930--24920989 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
24920920 TGATTTTTTT
* *
24920930 AACC-TGAACCCTAAACTATGGATCCTG
1 AACCTTGAACCCTAAACCATGGACCCTG
24920957 AACCTTGAACCCTAAACCATGGACCCTG
1 AACCTTGAACCCTAAACCATGGACCCTG
*
24920985 GACCT
1 AACCT
24920990 AGGGACCCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (28 bp):
AACCTTGAACCCTAAACCATGGACCCTG
Found at i:24921011 original size:14 final size:14
Alignment explanation
Indices: 24920948--24921011 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
24920938 CCCTAAACTA
*
24920948 TGGATCCTGAACCT
1 TGGACCCTGAACCT
* * *
24920962 TGAACCCTAAACCA
1 TGGACCCTGAACCT
*
24920976 TGGACCCTGGACCT
1 TGGACCCTGAACCT
* *
24920990 AGGGACCCTGTACCT
1 -TGGACCCTGAACCT
24921005 TGGACCC
1 TGGACCC
24921012 AAGGTTTAGG
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.20
Consensus pattern (14 bp):
TGGACCCTGAACCT
Found at i:24921148 original size:14 final size:14
Alignment explanation
Indices: 24921111--24921150 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
24921101 AGGTTTAAGA
* *
24921111 TTCAGGGTCCAGAG
1 TTCAAGGTCTAGAG
24921125 TTCAAGGTCTAGAG
1 TTCAAGGTCTAGAG
24921139 TTCAAGGTCTAG
1 TTCAAGGTCTAG
24921151 GATCGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (14 bp):
TTCAAGGTCTAGAG
Found at i:24922649 original size:13 final size:14
Alignment explanation
Indices: 24922610--24922654 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
24922600 TACAAGTCAG
*
24922610 ATAAAATAATTAAA
1 ATAAAATAACTAAA
24922624 AT-AAATAACTAAA
1 ATAAAATAACTAAA
24922637 ATAAAATAA-TAAA
1 ATAAAATAACTAAA
*
24922650 TTAAA
1 ATAAA
24922655 GATTAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAACTAAA
Found at i:24925845 original size:36 final size:36
Alignment explanation
Indices: 24925805--24925881 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
24925795 ATTTTTTTTC
24925805 CTAAAGATGATTTTACTAGTATCCAATCACACTTAG
1 CTAAAGATGATTTTACTAGTATCCAATCACACTTAG
24925841 CTAAAGATGATTTTACTAGTATCCAATCACACTTAG
1 CTAAAGATGATTTTACTAGTATCCAATCACACTTAG
24925877 CTAAA
1 CTAAA
24925882 AAAAAGTTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (36 bp):
CTAAAGATGATTTTACTAGTATCCAATCACACTTAG
Found at i:24927779 original size:16 final size:17
Alignment explanation
Indices: 24927740--24927780 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
24927730 CGTAAAAAAA
*
24927740 TATAATTTTATCATTTT
1 TATAAGTTTATCATTTT
*
24927757 AAT-AGTTTAT-ATTTT
1 TATAAGTTTATCATTTT
24927772 TATAAGTTT
1 TATAAGTTT
24927781 TAAAGAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (17 bp):
TATAAGTTTATCATTTT
Found at i:24933071 original size:175 final size:175
Alignment explanation
Indices: 24932784--24933118 Score: 670
Period size: 175 Copynumber: 1.9 Consensus size: 175
24932774 ATAAAACACT
24932784 CCCCCCCCCCCAAAAAAAAAAATTGTATTTAAATTGTGTGCTTCATTTTCATATAATACTAATTA
1 CCCCCCCCCCCAAAAAAAAAAATTGTATTTAAATTGTGTGCTTCATTTTCATATAATACTAATTA
24932849 ATTTAGAATTTGAGAAACATTAGCATCTGTAACCAACCATGTCAAAGGCAGCATTTACCTTATTT
66 ATTTAGAATTTGAGAAACATTAGCATCTGTAACCAACCATGTCAAAGGCAGCATTTACCTTATTT
24932914 AGCCATAAAGCAAACCAGACTGTCCCCAAAAAAAAAAAAAACCCC
131 AGCCATAAAGCAAACCAGACTGTCCCCAAAAAAAAAAAAAACCCC
24932959 CCCCCCCCCCCAAAAAAAAAAATTGTATTTAAATTGTGTGCTTCATTTTCATATAATACTAATTA
1 CCCCCCCCCCCAAAAAAAAAAATTGTATTTAAATTGTGTGCTTCATTTTCATATAATACTAATTA
24933024 ATTTAGAATTTGAGAAACATTAGCATCTGTAACCAACCATGTCAAAGGCAGCATTTACCTTATTT
66 ATTTAGAATTTGAGAAACATTAGCATCTGTAACCAACCATGTCAAAGGCAGCATTTACCTTATTT
24933089 AGCCATAAAGCAAACCAGACTGTCCCCAAA
131 AGCCATAAAGCAAACCAGACTGTCCCCAAA
24933119 GAGCCGAAGG
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 160 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.27
Consensus pattern (175 bp):
CCCCCCCCCCCAAAAAAAAAAATTGTATTTAAATTGTGTGCTTCATTTTCATATAATACTAATTA
ATTTAGAATTTGAGAAACATTAGCATCTGTAACCAACCATGTCAAAGGCAGCATTTACCTTATTT
AGCCATAAAGCAAACCAGACTGTCCCCAAAAAAAAAAAAAACCCC
Found at i:24934646 original size:16 final size:15
Alignment explanation
Indices: 24934613--24934686 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
24934603 TTGGTTCGTC
* *
24934613 GTAATAAATTAAAATT
1 GTAATAAA-TAGAGTT
24934629 GTAATATAATAGAGTT
1 GTAATA-AATAGAGTT
*
24934645 GTAATGAAATAGAGCT
1 GTAAT-AAATAGAGTT
* * *
24934661 ATAATAGAATAAAATT
1 GTAATA-AATAGAGTT
24934677 GTAATAAATA
1 GTAATAAATA
24934687 ATTCAATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.11
16 39 0.83
17 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.14, T:0.32
Consensus pattern (15 bp):
GTAATAAATAGAGTT
Found at i:24934978 original size:36 final size:36
Alignment explanation
Indices: 24934931--24935001 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
24934921 TATATATATA
24934931 AAAAATATCAAACATTTATACACCAAAAAAACCCAG
1 AAAAATATCAAACATTTATACACCAAAAAAACCCAG
* *
24934967 AAAAATATCAAATATTTATACACCAAACAAACCCA
1 AAAAATATCAAACATTTATACACCAAAAAAACCCA
24935002 TGTTTTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.58, C:0.23, G:0.01, T:0.18
Consensus pattern (36 bp):
AAAAATATCAAACATTTATACACCAAAAAAACCCAG
Found at i:24935894 original size:169 final size:169
Alignment explanation
Indices: 24935609--24935928 Score: 541
Period size: 169 Copynumber: 1.9 Consensus size: 169
24935599 ATGCCATTAC
* * *
24935609 AAAAAGAAGACATGAAATGTATGCTGCAGATTGATTAGAACCAGATTTTGAAAGTGCATCAACCA
1 AAAAAAAAGACATGAAATGTATGCTGCAGATCGATTAAAACCAGATTTTGAAAGTGCATCAACCA
* * *
24935674 TAACTTGATCTAATGTTTCCTTGGCCACAGTATCTATAATGTATAGAAAATTGACATCTAGAACA
66 TAACTTGATCTAATGTTTCCCTGGCCACAGTATCTATAATGTACAGAAAATTGACATCTAAAACA
*
24935739 ATGGCATAAACTAACAGTATGCTGCAGATCGATTGCAAA
131 ATGGCATAAACTAACAATATGCTGCAGATCGATTGCAAA
*
24935778 AAAAAAAAGACATGAAATGTATGCTGCAGATCGATTAAAACCAGATTTTGAAAGTGCATCAGCCA
1 AAAAAAAAGACATGAAATGTATGCTGCAGATCGATTAAAACCAGATTTTGAAAGTGCATCAACCA
* *
24935843 TAACTTGATCTAATGTTTCCCTGGCCATAGTATCTGTAATGTACAGAAAATTGACATCTAAAACA
66 TAACTTGATCTAATGTTTCCCTGGCCACAGTATCTATAATGTACAGAAAATTGACATCTAAAACA
*
24935908 ATGGCATGAACTAACAATATG
131 ATGGCATAAACTAACAATATG
24935929 TCTATTTTAG
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 140 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (169 bp):
AAAAAAAAGACATGAAATGTATGCTGCAGATCGATTAAAACCAGATTTTGAAAGTGCATCAACCA
TAACTTGATCTAATGTTTCCCTGGCCACAGTATCTATAATGTACAGAAAATTGACATCTAAAACA
ATGGCATAAACTAACAATATGCTGCAGATCGATTGCAAA
Found at i:24940715 original size:139 final size:139
Alignment explanation
Indices: 24940419--24940778 Score: 341
Period size: 139 Copynumber: 2.6 Consensus size: 139
24940409 ACAACCCCCA
* * * *
24940419 AAAATAGTTAGCGAGGGCTAAAGCTCTCAACTGC-GATCTTAATGCTAGCAGGTTCAATACCGCA
1 AAAATAGTTAGCGAGAG-TTAAGCTCTCAACT-CTGATCTTAAGGCTCGCAGGTTCAATACCGCA
* * * * * * **
24940483 GTCCCCAAAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTTTGATCTTAAAGTTCGCAGGTTCAAT
64 G-CCTCAAAAATAGTTAGCGAGAGCTAAGGCTCCAAGTTGTGATCCTAAAGCTCGCAAGACCAAT
** *
24940548 ACTGTATCCTCT
128 ACTACAGCCTCT
* * *
24940560 AAAATAGTTAGCGAGAGTTAAGGCTCTCAGCTCTGATCTTAAGGCTCGCAGGTTCAATATCGCTG
1 AAAATAGTTAGCGAGAGTTAA-GCTCTCAACTCTGATCTTAAGGCTCGCAGGTTCAATACCGCAG
* * * *
24940625 CCTCTAAAATAGTTAGCGAGAGCTAA-GCTCCAAGTTGTGATCCTAAGGCTCGCAAGACCGAT-G
65 CCTCAAAAATAGTTAGCGAGAGCTAAGGCTCCAAGTTGTGATCCTAAAGCTCGCAAGACCAATAC
24940688 TCACAGCCTCT
130 T-ACAGCCTCT
* * ** * ** *
24940699 AAAACT-GTTAGCGAGAGCTCAAGCTCTTATTTGTGATCTTAAGGCTCATAGGTTCAACACCGCA
1 AAAA-TAGTTAGCGAGAG-TTAAGCTCTCAACTCTGATCTTAAGGCTCGCAGGTTCAATACCGCA
* *
24940763 GCCTCCAAAACAGTTA
64 GCCTCAAAAATAGTTA
24940779 ATGCGAGCTG
Statistics
Matches: 180, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
138 1 0.01
139 95 0.53
140 32 0.18
141 52 0.29
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (139 bp):
AAAATAGTTAGCGAGAGTTAAGCTCTCAACTCTGATCTTAAGGCTCGCAGGTTCAATACCGCAGC
CTCAAAAATAGTTAGCGAGAGCTAAGGCTCCAAGTTGTGATCCTAAAGCTCGCAAGACCAATACT
ACAGCCTCT
Found at i:24940765 original size:70 final size:70
Alignment explanation
Indices: 24940000--24940778 Score: 441
Period size: 70 Copynumber: 11.1 Consensus size: 70
24939990 CCTCTAAAAG
* * * * * * * *
24940000 AAAATAGTTAGCGAAAGCTAAAGCTCCCAGTTGTAATCTTAGGGCTCACATGTTCAATACCACAG
1 AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCAG
24940065 CC-CT
66 CCTCT
* * * * * * * **
24940069 CAAAAAATTTAGCGAAAGCTAATGCT-CTCATTTGTGATCTTAAGGCTTGCAAGTTCAATACCAT
1 -AAAATAGTTAGCGAGAGCTAAGGCTCCT-AGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGC
24940133 AGCCTCT
64 AGCCTCT
* ** * * * * * * *
24940140 AAAATAGATA-CAGAGAAATAAGTCTCC-AGCTATGATCTTATGGCTCACAGTTTCAATACCACA
1 AAAATAGTTAGC-GAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCA
*
24940203 ACCTCT
65 GCCTCT
* * * * * * * * *
24940209 AAAATAGTTAGCAAGAGCTCAA-GCT-CTAAGCTATGATCTTAGGGCTTGCAGTTTTAATATCGT
1 AAAATAGTTAGCGAGAGCT-AAGGCTCCT-AGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGC
*
24940272 AGTCC-CA
64 AG-CCTCT
* * * * * * * * ** * * * * *
24940279 AAAAAAGTTAACGAAAGCTAAAGCTCCCAGCTATGATATTAATACTTGTAAGTTCAATACCACAA
1 AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCAG
*
24940344 CCTTT
66 CCTCT
* * ** * * * * *
24940349 AAAATAGTTAGCGAGAGCTAA-CCTCCCAACTATAATCTTAGGGCTCGCAGGTTCAATATCACAA
1 AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGC-A
* * *
24940413 CCCCCA
65 GCCTCT
* * ** * * *
24940419 AAAATAGTTAGCGAGGGCTAAAGCT-CTCAACTGCGATCTTAATGCTAGCAGGTTCAATACCGCA
1 AAAATAGTTAGCGAGAGCTAAGGCTCCT-AGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCA
* *
24940483 GTCCCCA
65 G-CCTCT
* * * * * *
24940490 AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTTTGATCTTAAAGTTCGCAGGTTCAATACTGTAT
1 AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCAG
24940555 CCTCT
66 CCTCT
* * * * *
24940560 AAAATAGTTAGCGAGAGTTAAGGCT-CTCAGCTCTGATCTTAAGGCTCGCAGGTTCAATATCGCT
1 AAAATAGTTAGCGAGAGCTAAGGCTCCT-AGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCA
24940624 GCCTCT
65 GCCTCT
* * * ** * ** *
24940630 AAAATAGTTAGCGAGAGCTAA-GCTCCAAGTTGTGATCCTAAGGCTCGCAAGACCGATGTCACAG
1 AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCAG
24940694 CCTCT
66 CCTCT
* * ** *
24940699 AAAACT-GTTAGCGAGAGCTCAA-GCTCTTATTTGTGATCTTAAGGCTCATAGGTTCAACACCGC
1 AAAA-TAGTTAGCGAGAGCT-AAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGC
*
24940762 AGCCTCC
64 AGCCTCT
*
24940769 AAAACAGTTA
1 AAAATAGTTA
24940779 ATGCGAGCTG
Statistics
Matches: 543, Mismatches: 144, Indels: 44
0.74 0.20 0.06
Matches are distributed among these distances:
68 1 0.00
69 137 0.25
70 313 0.58
71 90 0.17
72 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (70 bp):
AAAATAGTTAGCGAGAGCTAAGGCTCCTAGTTGTGATCTTAAGGCTCGCAGGTTCAATACCGCAG
CCTCT
Found at i:24941908 original size:24 final size:24
Alignment explanation
Indices: 24941855--24941908 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
24941845 GGTGACACAG
*
24941855 AGCTAGCTTACCACTATTTTCAGC
1 AGCTAGCTCACCACTATTTTCAGC
* *
24941879 AACTAGCTCACCACTATTTTCAGT
1 AGCTAGCTCACCACTATTTTCAGC
24941903 AGCTAG
1 AGCTAG
24941909 TTCCCTAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (24 bp):
AGCTAGCTCACCACTATTTTCAGC
Found at i:24948646 original size:16 final size:18
Alignment explanation
Indices: 24948620--24948652 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24948610 TAGAATTGGG
24948620 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
24948637 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
24948653 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:24948651 original size:17 final size:17
Alignment explanation
Indices: 24948620--24948668 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
24948610 TAGAATTGGG
24948620 TTGAGAAAATT-ATTTAA
1 TTGA-AAAATTAATTTAA
24948637 TTGAAAAATTAATTT-A
1 TTGAAAAATTAATTTAA
*
24948653 TT--TAAATTAATTTAA
1 TTGAAAAATTAATTTAA
24948668 T
1 T
24948669 AAATAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 9 0.31
17 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTGAAAAATTAATTTAA
Found at i:24948746 original size:13 final size:14
Alignment explanation
Indices: 24948724--24948757 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
24948714 AATAAATTAT
24948724 AAAGTGTTA-GGTTA
1 AAAGT-TTAGGGTTA
24948738 AAAGTTTAGGGTTA
1 AAAGTTTAGGGTTA
24948752 AAAGTT
1 AAAGTT
24948758 CAAGAAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (14 bp):
AAAGTTTAGGGTTA
Found at i:24955786 original size:38 final size:37
Alignment explanation
Indices: 24955740--24955817 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 37
24955730 AAATTAGGAC
*
24955740 ATAAAAATTATTAAAATGTGATTTTATGCTTTATTAT
1 ATAAAAATTATTAAAATGTGATTTTATACTTTATTAT
24955777 ATAATAAATTATTAAAATGTGATTTTATACTTTATTAT
1 ATAA-AAATTATTAAAATGTGATTTTATACTTTATTAT
24955815 ATA
1 ATA
24955818 GTTTTCATGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (37 bp):
ATAAAAATTATTAAAATGTGATTTTATACTTTATTAT
Found at i:24956402 original size:11 final size:11
Alignment explanation
Indices: 24956386--24956422 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
24956376 CTTCATTCAT
24956386 CATCCCTCAAG
1 CATCCCTCAAG
24956397 CATCCCTCAAG
1 CATCCCTCAAG
* *
24956408 CATTCATCAAG
1 CATCCCTCAAG
24956419 CATC
1 CATC
24956423 ATTCTCTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.30, C:0.41, G:0.08, T:0.22
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:24957364 original size:84 final size:84
Alignment explanation
Indices: 24957267--24957420 Score: 272
Period size: 84 Copynumber: 1.8 Consensus size: 84
24957257 TCATTCATAA
* *
24957267 AGTTTGCATACTTAGGATCATTTGCATTAGGGATCATTGCATTTAATTTAATATATTATAATCAC
1 AGTTTGCATACTTAGGATAATTGGCATTAGGGATCATTGCATTTAATTTAATATATTATAATCAC
24957332 CACTTTTCATCTATAGTAT
66 CACTTTTCATCTATAGTAT
* *
24957351 AGTTTGCATACTTAGGATAATTGGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAATCAC
1 AGTTTGCATACTTAGGATAATTGGCATTAGGGATCATTGCATTTAATTTAATATATTATAATCAC
24957416 CACTT
66 CACTT
24957421 CTCTACTATA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (84 bp):
AGTTTGCATACTTAGGATAATTGGCATTAGGGATCATTGCATTTAATTTAATATATTATAATCAC
CACTTTTCATCTATAGTAT
Found at i:24963369 original size:27 final size:27
Alignment explanation
Indices: 24963331--24963404 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
24963321 ACTGGGTCAG
*
24963331 GCCAATGCCATTGGCGTCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAAAGGT
*
24963358 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAAGGT
24963385 GCCAATGCCATTGGCGGCAC
1 GCCAATGCCATTGGCGGCAC
24963405 TACTCGTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAAAGGT
Found at i:24963640 original size:13 final size:13
Alignment explanation
Indices: 24963622--24963648 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24963612 ATAGTTTTAG
24963622 TTATTATTATTAT
1 TTATTATTATTAT
24963635 TTATTATTATTAT
1 TTATTATTATTAT
24963648 T
1 T
24963649 GTTGTTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:24968508 original size:3 final size:3
Alignment explanation
Indices: 24968497--24968595 Score: 52
Period size: 3 Copynumber: 35.0 Consensus size: 3
24968487 TTTTCCCTTC
* * * *
24968497 CTT CCT CTT CTT CTT CTT CTT CTT -TT -TT TTT C-T CTT CTC CTT -TC
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * * *
24968541 CTT -TT CTT -TC CTT CTT TTT CTTT CTT -TT -TT CTT CTC CTTT CCT
1 CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT CTT
24968584 CTT CTT CTT CTT
1 CTT CTT CTT CTT
24968596 TCTTTTTTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
2 14 0.19
3 54 0.74
4 5 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:24968555 original size:36 final size:33
Alignment explanation
Indices: 24968499--24968646 Score: 111
Period size: 34 Copynumber: 4.2 Consensus size: 33
24968489 TTCCCTTCCT
*
24968499 TCCTCTTCTTCTTCTTCTTCTTTTTTTTTCTCTTC
1 TCCT-TTCCTCTTCTTCTTCTTTTTTTTT-TCTTC
*
24968534 TCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTC
1 TCCTTTCC---TC-TT-CTTC---TTCTTTTTTTTTTCTTC
*
24968575 TCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTTTC
1 TCCTTTCCTCTTCTTCTTCTTT-TTTTTTTCTTC
* * *
24968609 TCCTTTCAT-TTCCTTCTT-TTTCTTTCTTTCCTC
1 TCCTTTCCTCTT-CTTCTTCTTT-TTTTTTTCTTC
24968642 TCCTT
1 TCCTT
24968647 CCTTCCTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
33 25 0.26
34 26 0.27
35 4 0.04
36 4 0.04
37 4 0.04
38 4 0.04
39 4 0.04
41 13 0.14
42 11 0.12
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (33 bp):
TCCTTTCCTCTTCTTCTTCTTTTTTTTTTCTTC
Found at i:24968557 original size:13 final size:13
Alignment explanation
Indices: 24968541--24968679 Score: 63
Period size: 13 Copynumber: 10.3 Consensus size: 13
24968531 TTCTCCTTTC
24968541 CTTTTCTTTCCTT
1 CTTTTCTTTCCTT
24968554 CTTTTTCTTT-CTT
1 C-TTTTCTTTCCTT
24968567 -TTTTCTTCTCCTTT
1 CTTTTCTT-TCC-TT
* *
24968581 CCTCTTCTTCTTCTTT
1 -CTTTTC-T-TTCCTT
*
24968597 CTTTT-TTT-TTT
1 CTTTTCTTTCCTT
24968608 CTCCTTTCATTTCCTT
1 CT--TTTC-TTTCCTT
*
24968624 CTTTTTCTTTCTTT
1 C-TTTTCTTTCCTT
* * *
24968638 CCTCTCCTTCCTT
1 CTTTTCTTTCCTT
* *
24968651 CCTTTCTTTCTTT
1 CTTTTCTTTCCTT
*
24968664 C-TTTCTTTCTTT
1 CTTTTCTTTCCTT
24968676 CTTT
1 CTTT
24968680 CCGTCTCCTT
Statistics
Matches: 99, Mismatches: 12, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
11 12 0.12
12 15 0.15
13 30 0.30
14 17 0.17
15 11 0.11
16 9 0.09
17 4 0.04
18 1 0.01
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (13 bp):
CTTTTCTTTCCTT
Found at i:24968560 original size:10 final size:10
Alignment explanation
Indices: 24968509--24968637 Score: 52
Period size: 10 Copynumber: 12.7 Consensus size: 10
24968499 TCCTCTTCTT
*
24968509 CTTCTTCTTC
1 CTTCTTTTTC
* *
24968519 TTTTTTTTTC
1 CTTCTTTTTC
*
24968529 TCTTCTCCTTTC
1 -CTTCT-TTTTC
24968541 CTT-TTCTTTC
1 CTTCTT-TTTC
24968551 CTTCTTTTTC
1 CTTCTTTTTC
* *
24968561 TTTCTTTTTT
1 CTTCTTTTTC
*
24968571 CTTCTCCTTTCC
1 CTTCT--TTTTC
*
24968583 TCTTCTTCTTC
1 -CTTCTTTTTC
*
24968594 TTTCTTTTT-
1 CTTCTTTTTC
*
24968603 -TT-TTTCTC
1 CTTCTTTTTC
*
24968611 CTT-TCATTTC
1 CTTCT-TTTTC
24968621 CTTCTTTTTC
1 CTTCTTTTTC
*
24968631 TTTCTTT
1 CTTCTTT
24968638 CCTCTCCTTC
Statistics
Matches: 87, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
7 4 0.05
8 2 0.02
9 3 0.03
10 54 0.62
11 12 0.14
12 7 0.08
13 5 0.06
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTCTTTTTC
Found at i:24968564 original size:4 final size:4
Alignment explanation
Indices: 24968543--24968680 Score: 87
Period size: 4 Copynumber: 35.0 Consensus size: 4
24968533 CTCCTTTCCT
*
24968543 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* * *
24968588 -TTC -TTC TTTC TTT- TTTT TTTC -TCC TTTC ATTTC CTTC -TT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC
* * *
24968631 TTTC TTTCC TCTCC TTCC TTCC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
24968681 CGTCTCCTTC
Statistics
Matches: 113, Mismatches: 7, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
3 22 0.19
4 71 0.63
5 14 0.12
6 6 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:24968634 original size:37 final size:36
Alignment explanation
Indices: 24968515--24968679 Score: 140
Period size: 34 Copynumber: 4.5 Consensus size: 36
24968505 TCTTCTTCTT
* * * *
24968515 CTTCTTTTTTTTTCTCTTCTCCTT-TCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTTCTTCTCC-TTTCTTTC
*
24968551 CTTCTTTTTCTTTC-TTTTTTCTTCTCCTTTC-CT-
1 CTTCTTTTTCTTTCTTTTTTTCTTCTCCTTTCTTTC
* *
24968584 CTTCTTCTTCTTTCTTTTTTTTTTCTCCTTTCATTTC
1 CTTCTTTTTCTTTCTTTTTTTCTTCTCCTTTC-TTTC
* *
24968621 CTTCTTTTTCTTTCTTTCCTCTCCTTCCTTCCTTTCTTTC
1 CTTCTTTTTCTTTCTTT--TTTTCTT-C-TCCTTTCTTTC
*
24968661 TTTCTTTCTTTCTTTCTTT
1 CTTC-TT-TTTCTTTCTTT
24968680 CCGTCTCCTT
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
33 13 0.12
34 17 0.16
35 10 0.10
36 17 0.16
37 16 0.15
39 4 0.04
40 8 0.08
41 9 0.09
42 11 0.10
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (36 bp):
CTTCTTTTTCTTTCTTTTTTTCTTCTCCTTTCTTTC
Found at i:24968653 original size:70 final size:71
Alignment explanation
Indices: 24968543--24968680 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 71
24968533 CTCCTTTCCT
** * *
24968543 TTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTC-TTC-TTCTTTCTTT-TTTT
1 TTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTCCTTTCCT-TTCTTTCTTTCTTTCTTTCTTTC
24968605 TTTCTCC
65 TTTCTCC
24968612 TTTCATTTCCTTCTTTTTCTTTCTTTCCTCTCCTTCC-TTCCTTTCTTTCTTTCTTTCTTTCTTT
1 TTTC-TTTCCTTCTTTTTCTTTCTTTCCTCTCC-TCCTTTCCTTTCTTTCTTTCTTTCTTTCTTT
24968676 CTTTC
64 CTTTC
24968681 CGTCTCCTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
69 7 0.12
70 33 0.55
71 13 0.22
72 7 0.12
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (71 bp):
TTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTCCTTTCCTTTCTTTCTTTCTTTCTTTCTTTCT
TTCTCC
Found at i:24968654 original size:75 final size:77
Alignment explanation
Indices: 24968486--24968690 Score: 209
Period size: 75 Copynumber: 2.7 Consensus size: 77
24968476 AAATTGCCTT
*
24968486 TTTTTCCCTTCCTTCCTCTTCTTCTTCTTCTTCTTT-TTTTTTCTCTTCTCCTTTCCTTTTCTTT
1 TTTTT-CCTTCCTTCCT-TTCCTCTTCTTCTTCTTTCTTTTTTCTCTTCTCC-TTCCTTTTCTTT
24968550 CCTTCTTTTTCTTTC
63 CCTTCTTTTTCTTTC
*
24968565 TTTTTTCTT-C-TCCTTTCCTCTTCTTCTTCTTTCTTTTTT-T-TT-T-C-TCC-TTTCATTTCC
1 TTTTTCCTTCCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTCTCTTCTCCTTCCTTTTC-TTTCC
24968622 TTCTTTTTCTTTC
65 TTCTTTTTCTTTC
*
24968635 TTTCCTCTCCTTCCTTCCTTT-CT-TTCTTTCTTTCTTTCTTTCTTTC-CGTCTCCTTC
1 TTT--T-TCCTTCCTTCCTTTCCTCTTC-TTC-TTCTTTCTTT-TTTCTCTTCTCCTTC
24968691 TCCCCCCCCC
Statistics
Matches: 107, Mismatches: 4, Indels: 29
0.76 0.03 0.21
Matches are distributed among these distances:
69 4 0.04
70 24 0.22
72 2 0.02
73 8 0.07
74 8 0.07
75 34 0.32
76 13 0.12
77 2 0.02
78 4 0.04
79 6 0.06
80 2 0.02
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.66
Consensus pattern (77 bp):
TTTTTCCTTCCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTCTCTTCTCCTTCCTTTTCTTTCCT
TCTTTTTCTTTC
Found at i:24968780 original size:10 final size:10
Alignment explanation
Indices: 24968757--24968795 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
24968747 TTGGCCTGAC
24968757 CCAG-TTTTT
1 CCAGCTTTTT
*
24968766 TCAGCTTTTT
1 CCAGCTTTTT
24968776 CCAGCTTTTT
1 CCAGCTTTTT
24968786 CCAGGCTTTT
1 CCA-GCTTTT
24968796 GCAGGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 3 0.12
10 17 0.65
11 6 0.23
ACGTcount: A:0.10, C:0.26, G:0.13, T:0.51
Consensus pattern (10 bp):
CCAGCTTTTT
Found at i:24968837 original size:24 final size:25
Alignment explanation
Indices: 24968805--24968864 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
24968795 TGCAGGTTTT
* *
24968805 TTTTAGTAAATAAAAATA-ATAATA
1 TTTTGGTAAATAAAAAAAGATAATA
24968829 TTTTGGTAAATAAAAAAAGATAATA
1 TTTTGGTAAATAAAAAAAGATAATA
*
24968854 TTTTGATAAAT
1 TTTTGGTAAAT
24968865 TTTTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.38
Consensus pattern (25 bp):
TTTTGGTAAATAAAAAAAGATAATA
Found at i:24968844 original size:25 final size:24
Alignment explanation
Indices: 24968805--24968864 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
24968795 TGCAGGTTTT
*
24968805 TTTTAGTAAATAAAAATA-ATAATA
1 TTTTGGTAAATAAAAA-AGATAATA
24968829 TTTTGGTAAATAAAAAAAGATAATA
1 TTTTGGTAAAT-AAAAAAGATAATA
*
24968854 TTTTGATAAAT
1 TTTTGGTAAAT
24968865 TTTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.38
Consensus pattern (24 bp):
TTTTGGTAAATAAAAAAGATAATA
Found at i:24974982 original size:6 final size:6
Alignment explanation
Indices: 24974971--24975003 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
24974961 TATACACAAT
24974971 TGCATG TGCATG TGCATG TGCATG TGCATG TGC
1 TGCATG TGCATG TGCATG TGCATG TGCATG TGC
24975004 CTGGCCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (6 bp):
TGCATG
Found at i:24977198 original size:11 final size:11
Alignment explanation
Indices: 24977162--24977253 Score: 98
Period size: 11 Copynumber: 8.4 Consensus size: 11
24977152 TAAATCCTTT
*
24977162 CTCTC-AATTT
1 CTCTCAAATTC
24977172 CTCTCCAATATT-
1 CTCT-CAA-ATTC
24977184 CTCTCAAATTC
1 CTCTCAAATTC
24977195 CTCTCAAATTC
1 CTCTCAAATTC
* *
24977206 CTTTCAAATTT
1 CTCTCAAATTC
24977217 CTCTCAAATTC
1 CTCTCAAATTC
* *
24977228 CTCTCAATTTT
1 CTCTCAAATTC
*
24977239 CTCTCAATTTC
1 CTCTCAAATTC
24977250 CTCT
1 CTCT
24977254 TTAAAAAACC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
10 7 0.10
11 56 0.79
12 5 0.07
13 3 0.04
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:24977199 original size:33 final size:32
Alignment explanation
Indices: 24977162--24977249 Score: 115
Period size: 33 Copynumber: 2.7 Consensus size: 32
24977152 TAAATCCTTT
*
24977162 CTCTCAATTTCTCTCCAATATTCTCTCAAATTC
1 CTCTCAATTTCTCTCAAAT-TTCTCTCAAATTC
* *
24977195 CTCTCAAATTCCTTTCAAATTTCTCTCAAATTC
1 CTCTC-AATTTCTCTCAAATTTCTCTCAAATTC
24977228 CTCTCAATTTTCTCTC-AATTTC
1 CTCTCAA-TTTCTCTCAAATTTC
24977250 CTCTTTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
32 8 0.17
33 29 0.60
34 11 0.23
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (32 bp):
CTCTCAATTTCTCTCAAATTTCTCTCAAATTC
Found at i:24978473 original size:7 final size:7
Alignment explanation
Indices: 24978461--24978486 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24978451 TAGTCGATTG
24978461 GTATTTA
1 GTATTTA
24978468 GTATTTA
1 GTATTTA
24978475 GTATTTA
1 GTATTTA
24978482 GTATT
1 GTATT
24978487 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:24979122 original size:18 final size:18
Alignment explanation
Indices: 24979091--24979133 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
24979081 TGCTAGGTGC
** *
24979091 GTATCCTAGGCCTTTTAT
1 GTATCCTAACCCTTATAT
24979109 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
24979127 GTTTCCT
1 GTATCCT
24979134 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:24981563 original size:126 final size:127
Alignment explanation
Indices: 24981338--24981878 Score: 901
Period size: 126 Copynumber: 4.3 Consensus size: 127
24981328 TCAGGCCAAA
* *
24981338 CAGGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * **
24981403 ATCCTACTT-AAGGTGTTTTTGAAACTATTTGCTCAGAAATGTCTACTCGAAATTATTTTTT
66 ATCCTACTTAAAGCTGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTT
*
24981464 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
24981529 ATCCTACTTAAAGCT-TTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTT
66 ATCCTACTTAAAGCTGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTT
*
24981590 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGT
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * *
24981655 ATCCTGCTTAAAG-TGTTTTTGACACTATTTGCTCAGAAACATCTTCTCGAAATTATTTTGT
66 ATCCTACTTAAAGCTGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTT
24981716 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * * *
24981781 ATCCTACTTAAAGC-GTTCTTGACACTATTTGCTTAGAAACGTCTTCTCGAAATTATTTTTT
66 ATCCTACTTAAAGCTGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTT
**
24981842 CAGGAGCTACTGTAGCAAAAAAGCGTCCACGTGGGAG
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAG
24981879 TTTTTTTAAA
Statistics
Matches: 392, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
125 1 0.00
126 387 0.99
127 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (127 bp):
CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
ATCCTACTTAAAGCTGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTT
Found at i:24986447 original size:128 final size:129
Alignment explanation
Indices: 24986307--24986555 Score: 347
Period size: 128 Copynumber: 1.9 Consensus size: 129
24986297 ACTTCTCAAA
* * * *
24986307 AGAGGATAAAAAACTACAGACAAAAGGAGATTTCACTATAATAAGTGAGAGAACAAAATATGGAG
1 AGAGGATAAAAAACTACAGACAAAAGAAGATTTCACTATAATAAATGAGAGAACAAAAGATGAAG
* ** *
24986372 AGGATTAAAAGAAAAACTTGAAACCCCACAAG-AAAAACCCTTCGAAACAAAGAACTCCTAAAG
66 AGAATTAAAAGAAAAACCCGAAACCCCACAAGAAAAAACCCTTCAAAACAAAGAACTCCTAAAG
* ** ** * *
24986435 AGAGGATTAAAAACTATGGACAAAAGAAGATTTTGCTATAATAAATTAGAGTACAAAAGATGAAG
1 AGAGGATAAAAAACTACAGACAAAAGAAGATTTCACTATAATAAATGAGAGAACAAAAGATGAAG
*
24986500 AGAATTAAAAGAAAAACCCGAAGCCCCACAAGAAAAAACCCTTCAAAACAAAGAAC
66 AGAATTAAAAGAAAAACCCGAAACCCCACAAGAAAAAACCCTTCAAAACAAAGAAC
24986556 AAAATTCTCT
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
128 82 0.79
129 22 0.21
ACGTcount: A:0.53, C:0.15, G:0.16, T:0.15
Consensus pattern (129 bp):
AGAGGATAAAAAACTACAGACAAAAGAAGATTTCACTATAATAAATGAGAGAACAAAAGATGAAG
AGAATTAAAAGAAAAACCCGAAACCCCACAAGAAAAAACCCTTCAAAACAAAGAACTCCTAAAG
Found at i:24988273 original size:14 final size:15
Alignment explanation
Indices: 24988256--24988284 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24988246 GAGTATGGTA
24988256 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
24988270 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
24988285 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:24988975 original size:22 final size:22
Alignment explanation
Indices: 24988947--24988989 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24988937 GTTTTGTCAA
*
24988947 TTTGAACTTTTATAAAGGTTTC
1 TTTGAACCTTTATAAAGGTTTC
24988969 TTTGAACCTTTATAAAGGTTT
1 TTTGAACCTTTATAAAGGTTT
24988990 ATTCTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (22 bp):
TTTGAACCTTTATAAAGGTTTC
Found at i:24989286 original size:15 final size:16
Alignment explanation
Indices: 24989257--24989291 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
24989247 GAAAATAGGT
24989257 ATTTTTTAGTAAAATA
1 ATTTTTTAGTAAAATA
*
24989273 ATTTTTT-GTCAAATA
1 ATTTTTTAGTAAAATA
24989288 ATTT
1 ATTT
24989292 ATAATTACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (16 bp):
ATTTTTTAGTAAAATA
Found at i:24990403 original size:16 final size:17
Alignment explanation
Indices: 24990371--24990408 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
24990361 TTGTAATAAT
*
24990371 TTAATTTATATTTATAC
1 TTAAATTATATTTATAC
24990388 TTAAATTATA-TTATAC
1 TTAAATTATATTTATAC
24990404 TTAAA
1 TTAAA
24990409 AGAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTATATTTATAC
Found at i:24994264 original size:29 final size:29
Alignment explanation
Indices: 24994208--24994268 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
24994198 ACTGAAAGTG
* * * *
24994208 TTTTTGTAAAATTGGCCTAGTTTCGTAAT
1 TTTTTGTAAAAATGGCCTAATCTAGTAAT
*
24994237 TTTTTTTAAAAATGGCCTAATCTAGTAAT
1 TTTTTGTAAAAATGGCCTAATCTAGTAAT
24994266 TTT
1 TTT
24994269 AAAAAATAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (29 bp):
TTTTTGTAAAAATGGCCTAATCTAGTAAT
Found at i:24998515 original size:5 final size:5
Alignment explanation
Indices: 24998476--24998505 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
24998466 AAAAGAAGTA
24998476 AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT
24998506 TTTATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:24999506 original size:27 final size:27
Alignment explanation
Indices: 24999476--24999540 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
24999466 CGCCAATGGG
*
24999476 ATTGGCGGCACCAATGGTGCCAATAC-C
1 ATTGGCGGCACCAATGGTGCC-ATACTA
*
24999503 ATTGGCGGAACCAATGGTGCCATACTA
1 ATTGGCGGCACCAATGGTGCCATACTA
24999530 ATTGGCGGCAC
1 ATTGGCGGCAC
24999541 TACTCGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCATACTA
Found at i:24999637 original size:11 final size:11
Alignment explanation
Indices: 24999621--24999660 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
24999611 GTTGCTGCGG
24999621 AAAAGAAGAGA
1 AAAAGAAGAGA
24999632 AAAAG-AGAGA
1 AAAAGAAGAGA
* *
24999642 AAAAGAGGAAA
1 AAAAGAAGAGA
24999653 AAAAGAAG
1 AAAAGAAG
24999661 GTATTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:24999655 original size:10 final size:10
Alignment explanation
Indices: 24999621--24999654 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
24999611 GTTGCTGCGG
24999621 AAAAGAAGAGA
1 AAAAG-AGAGA
24999632 AAAAGAGAGA
1 AAAAGAGAGA
24999642 AAAAGAG-GA
1 AAAAGAGAGA
24999651 AAAA
1 AAAA
24999655 AAGAAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 12 0.52
11 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAAGAGAGA
Found at i:24999722 original size:19 final size:21
Alignment explanation
Indices: 24999684--24999722 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24999674 AATAATTGAT
*
24999684 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
24999705 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
24999723 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:24999784 original size:3 final size:3
Alignment explanation
Indices: 24999768--24999805 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
24999758 AAAATAATAG
*
24999768 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24999806 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:24999810 original size:3 final size:3
Alignment explanation
Indices: 24999804--25000636 Score: 1666
Period size: 3 Copynumber: 277.7 Consensus size: 3
24999794 ATTATTATTA
24999804 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
24999852 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
24999900 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
24999948 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
24999996 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000044 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000092 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000140 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000188 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000236 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000284 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000332 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000380 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000428 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000476 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000524 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000572 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
25000620 TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TT
25000637 NNNNNNNNNN
Statistics
Matches: 830, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 830 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:25007995 original size:21 final size:21
Alignment explanation
Indices: 25007969--25008012 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25007959 GTTGTTGGGC
25007969 ATCCTCGCAATTAATTTACAT
1 ATCCTCGCAATTAATTTACAT
25007990 ATCCTCGCAATTAATTTACAT
1 ATCCTCGCAATTAATTTACAT
25008011 AT
1 AT
25008013 GGTAGGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.39
Consensus pattern (21 bp):
ATCCTCGCAATTAATTTACAT
Found at i:25009118 original size:13 final size:14
Alignment explanation
Indices: 25009099--25009132 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
25009089 ACGTCCTTTT
25009099 TTTTATAATATATA
1 TTTTATAATATATA
25009113 -TTTAT-ATATATA
1 TTTTATAATATATA
25009125 TTTTATAA
1 TTTTATAA
25009133 ATTAGTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.39
13 10 0.56
14 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTATAATATATA
Found at i:25014260 original size:71 final size:71
Alignment explanation
Indices: 25014172--25014585 Score: 399
Period size: 71 Copynumber: 5.8 Consensus size: 71
25014162 ATCTACCCTG
* * * * ** *
25014172 TTTGGACAGC-TCTTATACATCAATTTGGACATCATTTATATACCAAA-CAAGACAGCATTTTCA
1 TTTGGACAGCAT-ATATACAACAATTTGGGCAGCATTTATATACCAAATTGAG-CAGCATTTTTA
25014235 CACCAAAA
64 CACCAAAA
* * *
25014243 TTTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACA
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTACA
25014308 CCAAAA
66 CCAAAA
*
25014314 ATTGGACAGCATATATACAACGAA-TTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTAC
1 TTTGGACAGCATATATACAAC-AATTTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTAC
*
25014378 ATCAAAA
65 ACCAAAA
** * * * *
25014385 -TTGGACAGCATATATACAACAATTTGGGCAGCATAAAAACAACAAATTGAGCATCATTTTTACA
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTACA
25014449 CCAAAAA
66 CC-AAAA
* * * * ** * * * *
25014456 TTAGG-CAGCATATATATAACACTTTGGGTAGCATAAATACAACAAATTGGGCAGCA-TTTAAGC
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTA-C
*
25014519 ATCAAAA
65 ACCAAAA
* * * * * * * * *
25014526 ATTGGACAGCATATATGCAACAAATTGAGCAGTATATATACAACAAATTGGGCAGCATTT
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATTTATATACCAAATTGAGCAGCATTT
25014586 AAGCATCAAA
Statistics
Matches: 293, Mismatches: 41, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
69 2 0.01
70 67 0.23
71 214 0.73
72 10 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (71 bp):
TTTGGACAGCATATATACAACAATTTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTACA
CCAAAA
Found at i:25014275 original size:23 final size:23
Alignment explanation
Indices: 25014244--25014583 Score: 277
Period size: 23 Copynumber: 14.5 Consensus size: 23
25014234 ACACCAAAAT
* *
25014244 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
25014267 TTGGGCAGCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
25014290 TTGAGCAGCATTTTTACACCAAAAA
1 TTGGGCAGCATATATACA--ACAAA
* *
25014315 TTGGACAGCATATATACAACGAA
1 TTGGGCAGCATATATACAACAAA
* * *
25014338 TTGGGCAGCATTTATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
25014361 TTGAGCAGCATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
25014385 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* *
25014408 TTGGGCAGCATAAAAACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * * *
25014431 TTGAGCATCATTTTTACACCAAAAA
1 TTGGGCAGCATATATACA--ACAAA
* * **
25014456 TTAGGCAGCATATATATAACACT
1 TTGGGCAGCATATATACAACAAA
* *
25014479 TTGGGTAGCATAAATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* *
25014502 TTGGGCAGCATTTA-AGCATCAAAAA
1 TTGGGCAGCATATATA-CA--ACAAA
* *
25014527 TTGGACAGCATATATGCAACAAA
1 TTGGGCAGCATATATACAACAAA
* *
25014550 TTGAGCAGTATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
25014573 TTGGGCAGCAT
1 TTGGGCAGCAT
25014584 TTAAGCATCA
Statistics
Matches: 241, Mismatches: 67, Indels: 18
0.74 0.21 0.06
Matches are distributed among these distances:
22 1 0.00
23 170 0.71
24 18 0.07
25 52 0.22
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:25014276 original size:48 final size:46
Alignment explanation
Indices: 25014244--25014583 Score: 263
Period size: 48 Copynumber: 7.2 Consensus size: 46
25014234 ACACCAAAAT
*
25014244 TTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAATTGGGCAGCATATATACAACAAA
* * * * *
25014290 TT-GAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACGAA
1 TTGGA-CAGCATATATACA--ACAAATTGGGCAGCATATATACAACAAA
* * * * * * * *
25014338 TTGGGCAGCATTTATATACCAAATTGAGCAGCATTTTTACATCAAAA
1 TTGGACAGCATATATACAACAAATTGGGCAGCATATATACAAC-AAA
* * *
25014385 TTGGACAGCATATATACAACAATTTGGGCAGCATAAAAACAACAAA
1 TTGGACAGCATATATACAACAAATTGGGCAGCATATATACAACAAA
* * * * * * **
25014431 TT-GAGCATCATTTTTACACCAAAAATTAGGCAGCATATATATAACACT
1 TTGGA-CAGCATATATACA--ACAAATTGGGCAGCATATATACAACAAA
** * * *
25014479 TTGGGTAGCATAAATACAACAAATTGGGCAGCATTTA-AGCATCAAAAA
1 TTGGACAGCATATATACAACAAATTGGGCAGCATATATA-CA--ACAAA
* * *
25014527 TTGGACAGCATATATGCAACAAATTGAGCAGTATATATACAACAAA
1 TTGGACAGCATATATACAACAAATTGGGCAGCATATATACAACAAA
*
25014573 TTGGGCAGCAT
1 TTGGACAGCAT
25014584 TTAAGCATCA
Statistics
Matches: 220, Mismatches: 61, Indels: 26
0.72 0.20 0.08
Matches are distributed among these distances:
45 5 0.02
46 77 0.35
47 34 0.15
48 101 0.46
49 3 0.01
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (46 bp):
TTGGACAGCATATATACAACAAATTGGGCAGCATATATACAACAAA
Found at i:25014549 original size:25 final size:25
Alignment explanation
Indices: 25014494--25014549 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25014484 TAGCATAAAT
* *
25014494 ACAACAAATTGGGCAGCATTTAAGCA
1 ACAA-AAATTGGACAGCATATAAGCA
* *
25014520 TCAAAAATTGGACAGCATATATGCA
1 ACAAAAATTGGACAGCATATAAGCA
25014545 ACAAA
1 ACAAA
25014550 TTGAGCAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (25 bp):
ACAAAAATTGGACAGCATATAAGCA
Found at i:25014596 original size:71 final size:71
Alignment explanation
Indices: 25014224--25014585 Score: 471
Period size: 71 Copynumber: 5.1 Consensus size: 71
25014214 CCAAACAAGA
* * *
25014224 CAGCATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
1 CAGCATTTTTACATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
25014289 ATTGAG
66 ATTGAG
* * * *
25014295 CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACGAA-TTGGGCAGCATTTATATACCA
1 CAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC-AATTTGGGCAGCATATATACAACA
25014359 AATTGAG
65 AATTGAG
* *
25014366 CAGCATTTTTACATC-AAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAAAACAACAA
1 CAGCATTTTTACATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
25014430 ATTGAG
66 ATTGAG
* * * * * *
25014436 CATCATTTTTACACCAAAAATTAGG-CAGCATATATATAACACTTTGGGTAGCATAAATACAACA
1 CAGCATTTTTACATCAAAAATT-GGACAGCATATATACAACAATTTGGGCAGCATATATACAACA
*
25014500 AATTGGG
65 AATTGAG
* * * * *
25014507 CAGCA-TTTAAGCATCAAAAATTGGACAGCATATATGCAACAAATTGAGCAGTATATATACAACA
1 CAGCATTTTTA-CATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACA
*
25014571 AATTGGG
65 AATTGAG
25014578 CAGCATTT
1 CAGCATTT
25014586 AAGCATCAAA
Statistics
Matches: 255, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
69 2 0.01
70 66 0.26
71 181 0.71
72 6 0.02
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (71 bp):
CAGCATTTTTACATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
ATTGAG
Found at i:25014597 original size:141 final size:142
Alignment explanation
Indices: 25014224--25014585 Score: 489
Period size: 141 Copynumber: 2.6 Consensus size: 142
25014214 CCAAACAAGA
* * *
25014224 CAGCATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
1 CAGCATTTTAACATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
**
25014289 ATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACGAATTGGGCAGCATTTATA
66 ATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACGAATTGGGCAGCATAAATA
* *
25014354 TACCAAATTGAG
131 CAACAAATTGAG
* * *
25014366 CAGCATTTTTACATC-AAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAAAACAACAA
1 CAGCATTTTAACATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
* * * *
25014430 ATTGAGCATCATTTTTACACCAAAAATTAGG-CAGCATATATATAAC-ACTTTGGGTAGCATAAA
66 ATTGAGCAGCATTTTTACACCAAAAATT-GGACAGCATATATACAACGA-ATTGGGCAGCATAAA
*
25014493 TACAACAAATTGGG
129 TACAACAAATTGAG
* * * *
25014507 CAGCA-TTTAAGCATCAAAAATTGGACAGCATATATGCAACAAATTGAGCAGTATATATACAACA
1 CAGCATTTTAA-CATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACA
*
25014571 AATTGGGCAGCATTT
65 AATTGAGCAGCATTT
25014586 AAGCATCAAA
Statistics
Matches: 193, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
140 5 0.03
141 118 0.61
142 70 0.36
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (142 bp):
CAGCATTTTAACATCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
ATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACGAATTGGGCAGCATAAATA
CAACAAATTGAG
Found at i:25017690 original size:13 final size:13
Alignment explanation
Indices: 25017672--25017699 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25017662 CACAAACGAT
25017672 AAAATTTTCACAC
1 AAAATTTTCACAC
25017685 AAAATTTTCACAC
1 AAAATTTTCACAC
25017698 AA
1 AA
25017700 GTAAATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:25018464 original size:24 final size:24
Alignment explanation
Indices: 25018437--25018517 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
25018427 TCGAAAATAT
*
25018437 TTAATAAGTTCGCACACTTAGTGC
1 TTAATAAATTCGCACACTTAGTGC
25018461 TTAATAATCAATCTCGCACACTTAGTGC
1 TTAAT-A--AAT-TCGCACACTTAGTGC
*
25018489 TTTACAATTAAACTCGCACACTTAGTGC
1 -TT--AA-TAAATTCGCACACTTAGTGC
25018517 T
1 T
25018518 AATCTCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
27 3 0.06
28 30 0.64
29 4 0.09
31 3 0.06
32 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (24 bp):
TTAATAAATTCGCACACTTAGTGC
Found at i:25018478 original size:28 final size:28
Alignment explanation
Indices: 25018446--25018517 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
25018436 TTTAATAAGT
* *
25018446 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
25018474 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
25018502 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
25018518 AATCTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:25019364 original size:15 final size:16
Alignment explanation
Indices: 25019334--25019370 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25019324 TTAATATAAC
*
25019334 ATTATATTATACTTTT
1 ATTATTTTATACTTTT
25019350 ATTATTTTA-ACTTTT
1 ATTATTTTATACTTTT
25019365 A-TATTT
1 ATTATTT
25019371 AATATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 7 0.35
16 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTTTATACTTTT
Found at i:25021496 original size:43 final size:43
Alignment explanation
Indices: 25021449--25021560 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 43
25021439 TATTTTCGTA
* *
25021449 TAAGACCACGTCTGGGACGTTGGCTTCGAAT-TGT-ATATACGTG
1 TAAGACCACGTCTGGGACGTTGGCATC-AATATGTGAT-TACATG
* *
25021492 TAAGACC-CTGTTTGGGACAG-TGTCATCAATATGTGATTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCAATATGTGATTACATG
* *
25021535 TAAGTCCACGTCAGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
25021561 TGTACGAGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
42 5 0.09
43 46 0.84
44 4 0.07
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACATG
Found at i:25027678 original size:30 final size:31
Alignment explanation
Indices: 25027634--25027696 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
25027624 TAGTAAAAAT
* * *
25027634 AAAATTATATTTTAACCTTTTTAAAAA-TATA
1 AAAATTATAATTTAA-CGTATTAAAAATTATA
25027665 AAAATT-TAATTTAACGTATTAAAAATTATA
1 AAAATTATAATTTAACGTATTAAAAATTATA
25027695 AA
1 AA
25027697 GATATAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.32
30 13 0.46
31 6 0.21
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (31 bp):
AAAATTATAATTTAACGTATTAAAAATTATA
Found at i:25030116 original size:23 final size:23
Alignment explanation
Indices: 25030090--25030134 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25030080 TTTATATTTT
25030090 TAAAAAAAATTATAAA-AAAATTC
1 TAAAAAAAA-TATAAAGAAAATTC
* *
25030113 TAAAGAATATATAAAGAAAATT
1 TAAAAAAAATATAAAGAAAATT
25030135 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAAAAAATATAAAGAAAATTC
Found at i:25030525 original size:3 final size:3
Alignment explanation
Indices: 25030519--25030574 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
25030509 AAAAATTCTT
25030519 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25030567 TTA TTA TT
1 TTA TTA TT
25030575 TTCCAATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25031032 original size:3 final size:3
Alignment explanation
Indices: 25031026--25031052 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25031016 AAAAATTCTT
25031026 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
25031053 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.